Click here to switch to the map view.

The map label for this gene is truD

Identifier: 147673999

GI number: 147673999

Start: 52050

End: 53135

Strand: Direct

Name: truD

Synonym: VC0395_A0058

Alternate gene names: 147673999

Gene position: 52050-53135 (Clockwise)

Preceding gene: 147673364

Following gene: 147674427

Centisome position: 1.72

GC content: 50.55

Gene sequence:

>1086_bases
ATGACTGATATTCTCTCTCCTCTGGCTTATTTGTGCGGTAAACCGACTGCGAAGGCCAAACTCAAAGCGCTGCCAGAACA
CTTCCAAGTCAATGAAGTGTTGGGCTACTCCTTAACGGGACACGGCGAGCACTTGATGGTGCGTATTCGTAAGACAGGGG
AGAACACCAGCTTTGTGGCCAATGAATTAGCCAAAGCCTGTGGCGTACCTTCACGCGCGGTGAGCTGGGCGGGTTTAAAA
GACAGGCATGCCGTTACCGAGCAGTGGTTGAGTGTGCATCTGCCGAATGGCGAAACGCCGGATTTCTCTGCGTTTCTAGC
ACAATACCCTAGCATTGAAATTCTTGAGGTGACTCGCCACGACAAAAAGCTTCGTCCGGGTGATTTGCAAGGCAATGAAT
TTGTCGTCACCCTATCGGAAGTAAGCGATGTTGCAGCGGTATTAAGCCGTTTAGAAACGGTTGCTGAATTGGGCGTTCCC
AATTACTTCGGTAGCCAGCGTTTTGGACGTCATGGCAATAACCTCAGTGAGGCGCGCCGTTGGGGGCGTGACAATGTCCG
TTCGCGCAATCAGAATCAGCGCAGCTTATATCTGTCTGCGGCTCGTTCGTGGATTTTCAACCAGATTGTCTCAAAGCGAA
TTGAGCAGGGCTGTTTTGCCCGCTTTATTGAAGGTGATATCGCTTTAGCTGAGCAGCAAATGTTTAATGTTGATGGTGAT
TTAGCCCTTTGGGATCAGCGTTTGCAAGCTGGAGAAGTAGCGATTTCAGCGGCTTTGGCGGGCGATAATGCCTTGCCGAC
TTCTGGTCAAGCCTTGCCACTGGAACAAGCTGAATTGGATGCAGAGCCCGATTTAATGGCGCTGATCCGGGGGAATCGTA
TGCGCCATGATCGCCGTGCGATCGCCTTAAAAGCGCAAAACTTAAGCTGGCAAGTGCAAGAAGATCAAATCACTCTGCGT
TTCTCATTGGATGCGGGTAGCTTTGCCACTTCCTTAGTGCGTGAATTGATCGAAGAGATCCCAGTGGTGCGTCATTACGA
TCAAGGCCATGAACAAGAGAGCCGCGATTCAGAGAGCGAAGATTAA

Upstream 100 bases:

>100_bases
AAAAACTCGGCTTTACCGGACGTAAAGAAGGTATTGCCTGTGAAGCGGTTGTACTTTTGCGCAAAGCTTAACTCAGCCTA
TAAAAAATTTTGGAATTAAG

Downstream 100 bases:

>100_bases
GATGAAGATTCTACTCAGTAACGATGATGGCGTTTACGCACAAGGCATTCATGCTTTGGCGGATGCATTGCGTGATTTAG
CGGAGATTGTGATTGTCGCG

Product: tRNA pseudouridine synthase D

Products: NA

Alternate protein names: tRNA pseudouridylate synthase D; tRNA-uridine isomerase D

Number of amino acids: Translated: 361; Mature: 360

Protein sequence:

>361_residues
MTDILSPLAYLCGKPTAKAKLKALPEHFQVNEVLGYSLTGHGEHLMVRIRKTGENTSFVANELAKACGVPSRAVSWAGLK
DRHAVTEQWLSVHLPNGETPDFSAFLAQYPSIEILEVTRHDKKLRPGDLQGNEFVVTLSEVSDVAAVLSRLETVAELGVP
NYFGSQRFGRHGNNLSEARRWGRDNVRSRNQNQRSLYLSAARSWIFNQIVSKRIEQGCFARFIEGDIALAEQQMFNVDGD
LALWDQRLQAGEVAISAALAGDNALPTSGQALPLEQAELDAEPDLMALIRGNRMRHDRRAIALKAQNLSWQVQEDQITLR
FSLDAGSFATSLVRELIEEIPVVRHYDQGHEQESRDSESED

Sequences:

>Translated_361_residues
MTDILSPLAYLCGKPTAKAKLKALPEHFQVNEVLGYSLTGHGEHLMVRIRKTGENTSFVANELAKACGVPSRAVSWAGLK
DRHAVTEQWLSVHLPNGETPDFSAFLAQYPSIEILEVTRHDKKLRPGDLQGNEFVVTLSEVSDVAAVLSRLETVAELGVP
NYFGSQRFGRHGNNLSEARRWGRDNVRSRNQNQRSLYLSAARSWIFNQIVSKRIEQGCFARFIEGDIALAEQQMFNVDGD
LALWDQRLQAGEVAISAALAGDNALPTSGQALPLEQAELDAEPDLMALIRGNRMRHDRRAIALKAQNLSWQVQEDQITLR
FSLDAGSFATSLVRELIEEIPVVRHYDQGHEQESRDSESED
>Mature_360_residues
TDILSPLAYLCGKPTAKAKLKALPEHFQVNEVLGYSLTGHGEHLMVRIRKTGENTSFVANELAKACGVPSRAVSWAGLKD
RHAVTEQWLSVHLPNGETPDFSAFLAQYPSIEILEVTRHDKKLRPGDLQGNEFVVTLSEVSDVAAVLSRLETVAELGVPN
YFGSQRFGRHGNNLSEARRWGRDNVRSRNQNQRSLYLSAARSWIFNQIVSKRIEQGCFARFIEGDIALAEQQMFNVDGDL
ALWDQRLQAGEVAISAALAGDNALPTSGQALPLEQAELDAEPDLMALIRGNRMRHDRRAIALKAQNLSWQVQEDQITLRF
SLDAGSFATSLVRELIEEIPVVRHYDQGHEQESRDSESED

Specific function: Responsible for synthesis of pseudouridine from uracil- 13 in transfer RNAs

COG id: COG0585

COG function: function code S; Uncharacterized conserved protein

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Unknown [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 TRUD domain

Homologues:

Organism=Escherichia coli, GI1789102, Length=334, Percent_Identity=47.3053892215569, Blast_Score=271, Evalue=7e-74,
Organism=Saccharomyces cerevisiae, GI6324817, Length=140, Percent_Identity=34.2857142857143, Blast_Score=65, Evalue=1e-11,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): TRUD_VIBC3 (A5F9D8)

Other databases:

- EMBL:   CP000627
- EMBL:   CP001235
- ProteinModelPortal:   A5F9D8
- SMR:   A5F9D8
- STRING:   A5F9D8
- GenomeReviews:   CP000627_GR
- GenomeReviews:   CP001235_GR
- KEGG:   vco:VC0395_A0058
- eggNOG:   COG0585
- HOGENOM:   HBG541221
- OMA:   ALTRQWF
- ProtClustDB:   PRK00984
- BioCyc:   VCHO345073:VC0395_A0058-MONOMER
- HAMAP:   MF_01082
- InterPro:   IPR020103
- InterPro:   IPR001656
- InterPro:   IPR020119
- InterPro:   IPR011760
- PANTHER:   PTHR13326
- TIGRFAMs:   TIGR00094

Pfam domain/function: PF01142 TruD; SSF55120 PsdUridine_synth_cat_dom

EC number: NA

Molecular weight: Translated: 40241; Mature: 40109

Theoretical pI: Translated: 5.63; Mature: 5.63

Prosite motif: PS50984 TRUD; PS01268 UPF0024

Important sites: ACT_SITE 81-81

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
1.4 %Met     (Translated Protein)
2.2 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
1.1 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTDILSPLAYLCGKPTAKAKLKALPEHFQVNEVLGYSLTGHGEHLMVRIRKTGENTSFVA
CCHHHHHHHHHHCCCCHHHHHHHCHHHHHHHHHHCCEECCCCCEEEEEEEECCCCHHHHH
NELAKACGVPSRAVSWAGLKDRHAVTEQWLSVHLPNGETPDFSAFLAQYPSIEILEVTRH
HHHHHHHCCCHHHHCCCCCCHHHHHHHHHHEEECCCCCCCCHHHHHHHCCCCEEEEECCC
DKKLRPGDLQGNEFVVTLSEVSDVAAVLSRLETVAELGVPNYFGSQRFGRHGNNLSEARR
CCCCCCCCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCCCHHHHHH
WGRDNVRSRNQNQRSLYLSAARSWIFNQIVSKRIEQGCFARFIEGDIALAEQQMFNVDGD
CCCHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
LALWDQRLQAGEVAISAALAGDNALPTSGQALPLEQAELDAEPDLMALIRGNRMRHDRRA
HHHHHHHHHHHHHEEEEEECCCCCCCCCCCCCCCHHHHCCCCCCHHHHHHCCCCCCCHHE
IALKAQNLSWQVQEDQITLRFSLDAGSFATSLVRELIEEIPVVRHYDQGHEQESRDSESE
EEEEECCCEEEEECCEEEEEEEECCCHHHHHHHHHHHHHCCHHCCCCCCCCHHHCCCCCC
D
C
>Mature Secondary Structure 
TDILSPLAYLCGKPTAKAKLKALPEHFQVNEVLGYSLTGHGEHLMVRIRKTGENTSFVA
CHHHHHHHHHHCCCCHHHHHHHCHHHHHHHHHHCCEECCCCCEEEEEEEECCCCHHHHH
NELAKACGVPSRAVSWAGLKDRHAVTEQWLSVHLPNGETPDFSAFLAQYPSIEILEVTRH
HHHHHHHCCCHHHHCCCCCCHHHHHHHHHHEEECCCCCCCCHHHHHHHCCCCEEEEECCC
DKKLRPGDLQGNEFVVTLSEVSDVAAVLSRLETVAELGVPNYFGSQRFGRHGNNLSEARR
CCCCCCCCCCCCEEEEEHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHCCCCCCHHHHHH
WGRDNVRSRNQNQRSLYLSAARSWIFNQIVSKRIEQGCFARFIEGDIALAEQQMFNVDGD
CCCHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
LALWDQRLQAGEVAISAALAGDNALPTSGQALPLEQAELDAEPDLMALIRGNRMRHDRRA
HHHHHHHHHHHHHEEEEEECCCCCCCCCCCCCCCHHHHCCCCCCHHHHHHCCCCCCCHHE
IALKAQNLSWQVQEDQITLRFSLDAGSFATSLVRELIEEIPVVRHYDQGHEQESRDSESE
EEEEECCCEEEEECCEEEEEEEECCCHHHHHHHHHHHHHCCHHCCCCCCCCHHHCCCCCC
D
C

PDB accession: NA

Resolution: NA

Structure class: Unstructured

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: NA